Learn more about DNA extraction products for:

DNA Extraction From Cell-Free Samples

Biological fluid samples, such as plasma, serum, and urine, contain cell-free DNA (cfDNA). cfDNA is used in pathogen detection, and cfDNA targets are being used as biomarkers in oncology research. Isolation of cfDNA is challenging because of its low abundance in typical samples. In pathogen detection, virus particles are also typically in low abundance and therefore are challenging to capture. Thus, large volumes of biological fluids (which can be difficult to handle) are required to obtain sufficient amounts of cfDNA for analysis. We have developed scalable products capable of handling these large volumes while efficiently recovering cfDNA from a broad range of sample types in several format options.

Which DNA extraction kit for plasma, serum, and urine samples is right for you?

PureLink Microbiome DNA Purification Kit

The Invitrogen PureLink Microbiome DNA Purification Kit enables rapid isolation of high-quality microbial and host DNA from a wide variety of sample types, including challenging samples such as stool and soil. The kit uses proven PureLink spin column technology for robust yields of purified DNA from bacteria or fungi, ready for downstream applications such as PCR and sequencing. The highly efficient triple-lysis approach, fast removal of inhibitors, and versatility of this DNA extraction procedure make it the ultimate kit for microbiome research projects as well as programs aimed at rapid detection of pathogenic bacteria in various samples.

The PureLink Microbiome DNA Purification Kit offers:

Efficient lysis of all microorganisms (including durable species with thick and complex cell walls) by a combination of heat, chemical, and mechanical disruption with specialized beads

Elimination of inhibitory compounds by precipitation using a novel cleanup buffer

Streamlined protocols for a variety of biological samples

Recovery of highly pure DNA compatible with PCR, sequencing, and many other types of downstream analysis

One kit to isolate microbial and host DNA from a diversity of sample types

The PureLink Microbiome DNA Purification Kit eliminates the need to order “specialized” kits because it has been optimized for use with a wide range of biological samples. This versatile kit enables microbial (and host, where applicable) DNA purification from the following samples:

Stool

Urine

Saliva

Soil

Swabs (vaginal, buccal, skin, rectal, environmental)

Transport media

Growth media

Video: How to purify microbial and host DNA from stool samples Learn how to isolate microbial DNA that accurately reflects the diverse microbes in the community sampled. This video will provide an outline of stool microbial DNA isolation, plus some tips and tricks. In addition to stool, the PureLink Microbiome DNA Purification Kit can be used to isolate DNA from urine, saliva, swabs, transport media, microbial culture, and soil.

Video: Bringing bacteria out of hiding: Understanding the microbiome. Dr. Watts, the co-director of the Genomics Shared Service at the University of Arizona Cancer Center, focuses on understanding the human microbiome and its role in disease onset and progression. In particular, they are employing 16S RNA sequencing to help correctly identify all of the bacteria present in individuals with diabetic foot ulcers.

A29790

Supporting experimental data

Figure 1. Purification of microbial and host DNA from human stool. DNA was isolated from 0.2 g stool samples (in triplicate) obtained from three donors (D1–D3) with the PureLink Microbiome DNA Purification Kit (PL) and a leading competitor kit (MB). (A) Concentration of DNA as measured by a Thermo Scientific NanoDrop spectrophotometer and Invitrogen Qubit fluorometer, and DNA purity (A260/A230, A260/A280). Elution volume: 100 µL for both kits. The PureLink kit recovered 2–5 times more DNA than the competitor kit. (B) Analysis of DNA on a 0.8% agarose gel. M: 1 kb ladder. The PureLink kit recovered a substantially larger amount of DNA, of high integrity, than the competitor kit. (C) qPCR analysis of three bacterial targets—Bifidobacterium, E. coli, and Bacteroides/Prevotella—with corresponding Applied Biosystems TaqMan assays. The samples produced with the PureLink kit had lower threshold cycles (Ct) than those produced with the competitor kit, indicating better PCR amplification. Both a higher amount of DNA template and lower levels of inhibitors contribute to the efficiency of PCR amplification.

PCR clean-up from complex mixtures of DNA

PCR clean-up is a routine but time-consuming laboratory procedure. Now you can use an easier, faster, safer method and get superior results. Purify DNA using a simple and rapid PCR clean-up method that efficiently removes short primers, unincorporated dNTPs, enzymes, short-failed PCR products, and salts from PCR reactions.

Isolated DNA is ready for sequencing, PCR, transcription, mapping, cloning, and labeling. We offer a wide range of Invitrogen PCR clean-up kits, plus the support you may need to get high yields of pure DNA.

Perform both PCR purification and gel extraction?

Quick and Easy Gel Extraction of DNA

The PureLink Quick Gel Extraction Kit is designed to purify DNA fragments from agarose gels in less than 30 minutes. The simple procedure uses a unique silica-membrane spin column to capture and purify DNA fragments from 40 bp to 10 kb, without the need for pH adjustment. Isolated DNA is free of proteins, dye, and agarose and is ready to use in a variety of applications, including DNA sequencing, PCR, in vitro transcription, restriction mapping, cloning, and labeling (Figure 1).

Figure 1. Amplification of DNA isolated using the PureLink Quick Gel Extraction Kit. PCR amplicons varying in size from 100 bp to 5.4 kb were prepared using recombinant Taq DNA Polymerase. A portion of each PCR reaction was run on a 1% UltraPure Agarose gel (data not shown), and amplicon bands were excised and extracted using the PureLink Quick Gel Extraction Kit. Unpurified and gel-extracted PCR products were loaded onto a 1% agarose gel and visualized using SYBR Safe DNA Gel Stain

Technical Resources

Sequence-Specific RNA/DNA Purification

Invitrogen streptavidin-coupled Dynabeads are a robust and versatile tool that can be used to capture specific RNA or DNA sequences and then pull them directly out of solution. These monosized superparamagnetic Dynabeads provide an efficient and solid-phase alternative to nitrocellulose and provide you with an unmatched level of product quality and data consistency. Excellent near–liquid phase reaction kinetics allow for extremely fast protocols. The inherent ease of magnetic handling means that downstream manipulations and buffer changes are as simple as concentrating the bead-bound target at the tube-wall with a magnet and then discarding the supernatant. These beads are compatible with an extremely broad range of sample types including most bodily fluids, crude lysates of plant, animal and microbial origin as well as purified total RNA or DNA. Since these Dynabeads will only interact with specifically targeted RNA or DNA molecules, upstream purification of total RNA or DNA is almost always an unnecessary step.

The direct capture procedure involves the immobilization of double-stranded PCR products onto the beads. These are easily converted to single-stranded bead-bound templates which are then used to capture specific RNA or DNA molecules directly from solution.

An alternative indirect capture approach will offer faster reaction kinetics in some cases. This indirect capture procedure allows the target sequence to be captured prior to being immobilized the magnetic beads. First, a biotinylated capture-sequence (single-stranded DNA) is incubated with the sample and allowed to hybridize to the targeted RNA or DNA molecules in solution. Streptavidin-coated Dynabeads are then added to the mixture and the hybridized sequences are immobilized onto the Dynabeads via the streptavidin-biotin bond.

The 1 µm Dynabeads MyOne Streptavidin C1 present a very high surface area per mg of beads, enabling high enrichment of low abundance RNA or DNA. When the goal is to capture nucleic acid from more viscous samples such as cerebrospinal fluid, the larger 2.8 µm sized Dynabeads M-270 Streptavidin are recommended. These Dynabeads (MyOne Streptavidin C1 and M-270 Streptavidin) are optimally designed to have slightly negatively charged surfaces which ensure negligible non-specific binding of non-target nucleic acid sequences.

DNA Extraction From Cell-Free Samples

Biological fluid samples, such as plasma, serum, and urine, contain cell-free DNA (cfDNA). cfDNA is used in pathogen detection, and cfDNA targets are being used as biomarkers in oncology research. Isolation of cfDNA is challenging because of its low abundance in typical samples. In pathogen detection, virus particles are also typically in low abundance and therefore are challenging to capture. Thus, large volumes of biological fluids (which can be difficult to handle) are required to obtain sufficient amounts of cfDNA for analysis. We have developed scalable products capable of handling these large volumes while efficiently recovering cfDNA from a broad range of sample types in several format options.

Which DNA extraction kit for plasma, serum, and urine samples is right for you?

PureLink Microbiome DNA Purification Kit

The Invitrogen PureLink Microbiome DNA Purification Kit enables rapid isolation of high-quality microbial and host DNA from a wide variety of sample types, including challenging samples such as stool and soil. The kit uses proven PureLink spin column technology for robust yields of purified DNA from bacteria or fungi, ready for downstream applications such as PCR and sequencing. The highly efficient triple-lysis approach, fast removal of inhibitors, and versatility of this DNA extraction procedure make it the ultimate kit for microbiome research projects as well as programs aimed at rapid detection of pathogenic bacteria in various samples.

The PureLink Microbiome DNA Purification Kit offers:

Efficient lysis of all microorganisms (including durable species with thick and complex cell walls) by a combination of heat, chemical, and mechanical disruption with specialized beads

Elimination of inhibitory compounds by precipitation using a novel cleanup buffer

Streamlined protocols for a variety of biological samples

Recovery of highly pure DNA compatible with PCR, sequencing, and many other types of downstream analysis

One kit to isolate microbial and host DNA from a diversity of sample types

The PureLink Microbiome DNA Purification Kit eliminates the need to order “specialized” kits because it has been optimized for use with a wide range of biological samples. This versatile kit enables microbial (and host, where applicable) DNA purification from the following samples:

Stool

Urine

Saliva

Soil

Swabs (vaginal, buccal, skin, rectal, environmental)

Transport media

Growth media

Video: How to purify microbial and host DNA from stool samples Learn how to isolate microbial DNA that accurately reflects the diverse microbes in the community sampled. This video will provide an outline of stool microbial DNA isolation, plus some tips and tricks. In addition to stool, the PureLink Microbiome DNA Purification Kit can be used to isolate DNA from urine, saliva, swabs, transport media, microbial culture, and soil.

Video: Bringing bacteria out of hiding: Understanding the microbiome. Dr. Watts, the co-director of the Genomics Shared Service at the University of Arizona Cancer Center, focuses on understanding the human microbiome and its role in disease onset and progression. In particular, they are employing 16S RNA sequencing to help correctly identify all of the bacteria present in individuals with diabetic foot ulcers.

A29790

Supporting experimental data

Figure 1. Purification of microbial and host DNA from human stool. DNA was isolated from 0.2 g stool samples (in triplicate) obtained from three donors (D1–D3) with the PureLink Microbiome DNA Purification Kit (PL) and a leading competitor kit (MB). (A) Concentration of DNA as measured by a Thermo Scientific NanoDrop spectrophotometer and Invitrogen Qubit fluorometer, and DNA purity (A260/A230, A260/A280). Elution volume: 100 µL for both kits. The PureLink kit recovered 2–5 times more DNA than the competitor kit. (B) Analysis of DNA on a 0.8% agarose gel. M: 1 kb ladder. The PureLink kit recovered a substantially larger amount of DNA, of high integrity, than the competitor kit. (C) qPCR analysis of three bacterial targets—Bifidobacterium, E. coli, and Bacteroides/Prevotella—with corresponding Applied Biosystems TaqMan assays. The samples produced with the PureLink kit had lower threshold cycles (Ct) than those produced with the competitor kit, indicating better PCR amplification. Both a higher amount of DNA template and lower levels of inhibitors contribute to the efficiency of PCR amplification.

PCR clean-up from complex mixtures of DNA

PCR clean-up is a routine but time-consuming laboratory procedure. Now you can use an easier, faster, safer method and get superior results. Purify DNA using a simple and rapid PCR clean-up method that efficiently removes short primers, unincorporated dNTPs, enzymes, short-failed PCR products, and salts from PCR reactions.

Isolated DNA is ready for sequencing, PCR, transcription, mapping, cloning, and labeling. We offer a wide range of Invitrogen PCR clean-up kits, plus the support you may need to get high yields of pure DNA.

Quick and Easy Gel Extraction of DNA

The PureLink Quick Gel Extraction Kit is designed to purify DNA fragments from agarose gels in less than 30 minutes. The simple procedure uses a unique silica-membrane spin column to capture and purify DNA fragments from 40 bp to 10 kb, without the need for pH adjustment. Isolated DNA is free of proteins, dye, and agarose and is ready to use in a variety of applications, including DNA sequencing, PCR, in vitro transcription, restriction mapping, cloning, and labeling (Figure 1).

Figure 1. Amplification of DNA isolated using the PureLink Quick Gel Extraction Kit. PCR amplicons varying in size from 100 bp to 5.4 kb were prepared using recombinant Taq DNA Polymerase. A portion of each PCR reaction was run on a 1% UltraPure Agarose gel (data not shown), and amplicon bands were excised and extracted using the PureLink Quick Gel Extraction Kit. Unpurified and gel-extracted PCR products were loaded onto a 1% agarose gel and visualized using SYBR Safe DNA Gel Stain

Technical Resources

Sequence-Specific RNA/DNA Purification

Invitrogen streptavidin-coupled Dynabeads are a robust and versatile tool that can be used to capture specific RNA or DNA sequences and then pull them directly out of solution. These monosized superparamagnetic Dynabeads provide an efficient and solid-phase alternative to nitrocellulose and provide you with an unmatched level of product quality and data consistency. Excellent near–liquid phase reaction kinetics allow for extremely fast protocols. The inherent ease of magnetic handling means that downstream manipulations and buffer changes are as simple as concentrating the bead-bound target at the tube-wall with a magnet and then discarding the supernatant. These beads are compatible with an extremely broad range of sample types including most bodily fluids, crude lysates of plant, animal and microbial origin as well as purified total RNA or DNA. Since these Dynabeads will only interact with specifically targeted RNA or DNA molecules, upstream purification of total RNA or DNA is almost always an unnecessary step.

The direct capture procedure involves the immobilization of double-stranded PCR products onto the beads. These are easily converted to single-stranded bead-bound templates which are then used to capture specific RNA or DNA molecules directly from solution.

An alternative indirect capture approach will offer faster reaction kinetics in some cases. This indirect capture procedure allows the target sequence to be captured prior to being immobilized the magnetic beads. First, a biotinylated capture-sequence (single-stranded DNA) is incubated with the sample and allowed to hybridize to the targeted RNA or DNA molecules in solution. Streptavidin-coated Dynabeads are then added to the mixture and the hybridized sequences are immobilized onto the Dynabeads via the streptavidin-biotin bond.

The 1 µm Dynabeads MyOne Streptavidin C1 present a very high surface area per mg of beads, enabling high enrichment of low abundance RNA or DNA. When the goal is to capture nucleic acid from more viscous samples such as cerebrospinal fluid, the larger 2.8 µm sized Dynabeads M-270 Streptavidin are recommended. These Dynabeads (MyOne Streptavidin C1 and M-270 Streptavidin) are optimally designed to have slightly negatively charged surfaces which ensure negligible non-specific binding of non-target nucleic acid sequences.